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신종 코로나바이러스 특집 콘텐츠

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코로나 바이러스
코로나 바이러스, 2020. David S. Goodsell @ RCSB PDB에 의한 오리지널 일러스트를 수정

신종 코로나바이러스 감염증 (Novel Coronavirus disease 2019:COVID-19)의 확산이 세계적으로 매우 큰 문제가 되고 있습니다. 시급히 새로운 바이러스(Severe Acute Respiratory Syndrome Coronavirus 2: SARS-CoV-2)를 이해하고 효과적인 약을 개발하기 위해, 신속하게 구조 생물학 연구가 시작되고 있습니다. PDBj는 사용자의 편의를 도모하기 위해 신종 코로나바이러스의 특집 페이지를 제공하고 있습니다. 매주 수요일에 최신 항목이 추가됩니다.

바이러스 단백질에 관한 해설기사는 아래의 「이달의 분자」 페이지를 참조하십시오.

「전체 엔트리」 탭에는, 모든 PDB ID가 포함되어 있습니다. 이용자가 전체의 독립된 엔트리를 검색하고 싶을 때 사용하실 수 있으며, 동일 저자에 의한 그룹등록의 엔트리도 전부 구별되어 있습니다. 「대표구조」 탭에는, 분해능이 가장 높은 대표구조만을 표지하고 있습니다. 아미노산 서열이 100 % 일치하는 PDB 엔트리의 경우, 다른 리간드를 포함하여도 대표구조에는 제외됩니다. 「최신 엔트리」 탭은, 이번주 공개된 가장 최근의 엔트리 입니다.


Created: 2020-09-03 (last edited: more than 1 year ago)2022-09-02
8Z9L
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BU of 8z9l by Molmil
Crystal structure of SARS-CoV-2 RBD bound to Rhinolophus affinis ACE2
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, Angiotensin-converting enzyme, Spike protein S1, ...
Authors:Lan, J, Wang, C.H.
Deposit date:2024-04-23
Release date:2025-04-30
Last modified:2025-05-14
Method:X-RAY DIFFRACTION (3.598 Å)
Cite:Molecular mechanisms of RaTG13 and SARS-CoV-2 RBD bound to Rhinolophus affinis bat ACE2.
Protein Sci., 34, 2025
8ZBF
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BU of 8zbf by Molmil
Crystal structure of the A58-T10 DNA aptamer in complex with SARS-CoV-2 N-NTD
Descriptor: DNA (40-MER), Nucleoprotein, SODIUM ION
Authors:Chen, X, Huang, L.
Deposit date:2024-04-26
Release date:2025-04-30
Last modified:2025-05-07
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Molecular characterization and broad-spectrum mechanism of coronavirus N protein aptamer
To Be Published
9DTZ
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BU of 9dtz by Molmil
SARS-CoV-2 Mpro in complex with compound 5
Descriptor: 3C-like proteinase nsp5, N-[(2S)-3-cyclopropyl-1-({(2R)-1-imino-3-[(3R)-2-oxopyrrolidin-3-yl]propan-2-yl}amino)-1-oxopropan-2-yl]-4-methoxy-1H-indole-2-carboxamide, SODIUM ION
Authors:Bigelow, L, Tang, H, Boguslaw, N, Duda, D.M.
Deposit date:2024-10-02
Release date:2025-04-30
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Inhibition of Dimeric SARS-CoV-2 Mpro by Aldehyde and Nitrilebased Inhibitors Displays Positive Cooperativity and a Mixture of Covalent and Non-covalent Binding.
To Be Published
9DU2
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BU of 9du2 by Molmil
SARS-CoV-2 Mpro in complex with compound 7
Descriptor: 3C-like proteinase nsp5, N-[(2S)-3-cyclopropyl-1-{[(1Z,2S)-1-imino-4-(methanesulfonyl)butan-2-yl]amino}-1-oxopropan-2-yl]-4-methoxy-1H-indole-2-carboxamide
Authors:Bigelow, L, Tang, H, Boguslaw, N, Duda, D.M.
Deposit date:2024-10-02
Release date:2025-04-30
Method:X-RAY DIFFRACTION (1.86 Å)
Cite:Inhibition of Dimeric SARS-CoV-2 Mpro by Aldehyde and Nitrilebased Inhibitors Displays Positive Cooperativity and a Mixture of Covalent and Non-covalent Binding.
To Be Published
9DU3
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BU of 9du3 by Molmil
SARS-CoV-2 Mpro in complex with compound 1
Descriptor: 3C-like proteinase nsp5, N-[(2S)-3-cyclopropyl-1-({(2R)-1-hydroxy-3-[(3R)-2-oxopyrrolidin-3-yl]propan-2-yl}amino)-1-oxopropan-2-yl]-4-methoxy-1H-indole-2-carboxamide
Authors:Bigelow, L, Tang, H, Boguslaw, N, Duda, D.M.
Deposit date:2024-10-02
Release date:2025-04-30
Method:X-RAY DIFFRACTION (2.07 Å)
Cite:Inhibition of Dimeric SARS-CoV-2 Mpro by Aldehyde and Nitrilebased Inhibitors Displays Positive Cooperativity and a Mixture of Covalent and Non-covalent Binding.
To Be Published
9DU4
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BU of 9du4 by Molmil
SARS-CoV-2 Mpro in complex with compound 3
Descriptor: 3C-like proteinase nsp5, N-[(2S)-3-cyclopropyl-1-{[(2R)-1-hydroxy-4-(methanesulfonyl)butan-2-yl]amino}-1-oxopropan-2-yl]-4-methoxy-1H-indole-2-carboxamide
Authors:Bigelow, L, Tang, H, Boguslaw, N, Duda, D.M.
Deposit date:2024-10-02
Release date:2025-04-30
Method:X-RAY DIFFRACTION (2.42 Å)
Cite:Inhibition of Dimeric SARS-CoV-2 Mpro by Aldehyde and Nitrilebased Inhibitors Displays Positive Cooperativity and a Mixture of Covalent and Non-covalent Binding.
To Be Published
8WZ0
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BU of 8wz0 by Molmil
SARS-CoV-2 3CLpro bound to covalent inhibitor
Descriptor: (2~{R})-~{N}-[4,4-bis(fluoranyl)cyclohexyl]-2-[(2-chloranyl-2-fluoranyl-ethanoyl)-[4-(trifluoromethyloxy)phenyl]amino]-2-pyrimidin-5-yl-propanamide, 3C-like proteinase nsp5
Authors:Peng, J, Sun, D, Ding, X.
Deposit date:2023-11-01
Release date:2025-05-07
Method:X-RAY DIFFRACTION (2.45 Å)
Cite:SARS-CoV-2 3CLpro bound to covalent inhibitor
To Be Published
9BF8
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BU of 9bf8 by Molmil
SARS-CoV-2 Papain-like Protease (PLpro) Untagged Crystal Structure
Descriptor: 1,2-ETHANEDIOL, ORF1a polyprotein, PHOSPHATE ION, ...
Authors:Al-Homoudi, A.I, Engel, J, Brunzelle, J.S, Gavande, N, Kovari, L.C.
Deposit date:2024-04-17
Release date:2025-05-07
Method:X-RAY DIFFRACTION (1.85 Å)
Cite:Human Structural Homologues of SARS-CoV-2 PL pro as Anti-Targets: A Strategic Panel Analysis.
MicroPubl Biol, 2025, 2025
9FM4
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BU of 9fm4 by Molmil
Dynamic structure of the apical stem loop of the stem loop 2 motif (s2m) from SCoV-2 Delta variant.
Descriptor: RNA (25-MER)
Authors:Wirtz Martin, M.A, Matzel, T, Makowski, J, Kensinger, A, Herr, A, Wacker, A, Richter, C, Jonker, H.R.A, Evanseck, J, Schwalbe, H.
Deposit date:2024-06-05
Release date:2025-05-07
Last modified:2025-06-04
Method:SOLUTION NMR, SOLUTION SCATTERING
Cite:Characterization of structure and dynamics of the apical stem loop of s2m from SCoV-2 Delta by NMR spectroscopy, validated by MD and SAXS
To Be Published
8X1X
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BU of 8x1x by Molmil
SARS-CoV-2 Papain like protease (PLpro) in complex with inhibitor Lithocholic acid
Descriptor: (3beta,5beta,14beta,17alpha)-3-hydroxycholan-24-oic acid, GLYCEROL, Papain-like protease nsp3, ...
Authors:Choudhary, S, Verma, S, Kumar, P, Tomar, S.
Deposit date:2023-11-09
Release date:2025-05-14
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:SARS-CoV-2 Papain like protease (PLpro) in complex with inhibitor Lithocholic acid
To Be Published
9BLF
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BU of 9blf by Molmil
SARS-CoV-2 core polymerase complex inhibited by araCTP
Descriptor: 4-amino-1-{5-O-[(S)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]oxy}phosphoryl]-beta-D-arabinofuranosyl}pyrimidin-2(1H)-one, MAGNESIUM ION, Non-structural protein 7, ...
Authors:Anderson, T.K, Kirchdeorfer, R.N.
Deposit date:2024-04-30
Release date:2025-05-14
Method:ELECTRON MICROSCOPY (3.31 Å)
Cite:Structure of the SARS-CoV-2 core-RTC bound to RNA, araCMP, and araCTP
To Be Published
9BQF
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BU of 9bqf by Molmil
Structure of the SARS-CoV-2 main protease in complex with inhibitor 78
Descriptor: 3C-like proteinase nsp5, N-[(BENZYLOXY)CARBONYL]-O-(TERT-BUTYL)-L-THREONYL-3-CYCLOHEXYL-N-[(1S)-2-HYDROXY-1-{[(3S)-2-OXOPYRROLIDIN-3-YL]METHYL}ETHYL]-L-ALANINAMIDE
Authors:Blankenship, L.R, Liu, W.R.
Deposit date:2024-05-09
Release date:2025-05-14
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Structure of the SARS-CoV-2 main protease in complex with inhibitor 78
To Be Published
9BQG
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BU of 9bqg by Molmil
Structure of the SARS-CoV-2 main protease in complex with inhibitor k68
Descriptor: 3C-like proteinase nsp5, benzyl (2S,4S)-4-tert-butoxy-2-({(2R)-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propan-2-yl}carbamoyl)pyrrolidine-1-carboxylate
Authors:Blankenship, L.R, Liu, W.R.
Deposit date:2024-05-09
Release date:2025-05-14
Method:X-RAY DIFFRACTION (1.65 Å)
Cite:Structure of the SARS-CoV-2 main protease in complex with inhibitor k68
To Be Published
9BQL
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BU of 9bql by Molmil
Structure of the SARS-CoV-2 main protease in complex with inhibitor VB-A-32
Descriptor: 3C-like proteinase nsp5, O-tert-butyl-N-[(cyclopropylmethoxy)carbonyl]-L-threonyl-3-cyclohexyl-N-{(2R)-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propan-2-yl}-L-alaninamide
Authors:Blankenship, L.R, Liu, W.R.
Deposit date:2024-05-10
Release date:2025-05-14
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Structure of the SARS-CoV-2 main protease
To Be Published
9BQM
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BU of 9bqm by Molmil
Structure of the SARS-CoV-2 main protease in complex with inhibitor VB-A-26
Descriptor: 3C-like proteinase nsp5, O-tert-butyl-N-{[(propan-2-yl)oxy]carbonyl}-L-threonyl-3-cyclohexyl-N-{(2R)-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propan-2-yl}-L-alaninamide
Authors:Blankenship, L.R, Liu, W.R.
Deposit date:2024-05-10
Release date:2025-05-14
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Structure of the SARS-CoV-2 main protease
To Be Published
9BQN
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BU of 9bqn by Molmil
Structure of the SARS-CoV-2 main protease in complex with inhibitor VB-A-28
Descriptor: 3C-like proteinase nsp5, O-tert-butyl-N-[(2,2,2-trifluoroethoxy)carbonyl]-L-threonyl-3-cyclohexyl-N-{(2R)-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propan-2-yl}-L-alaninamide
Authors:Blankenship, L.R, Liu, W.R.
Deposit date:2024-05-10
Release date:2025-05-14
Method:X-RAY DIFFRACTION (2 Å)
Cite:To be determined
To Be Published
9BQO
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BU of 9bqo by Molmil
Structure of the SARS-CoV-2 main protease in complex with inhibitor k88
Descriptor: 3C-like proteinase nsp5, N-[(benzyloxy)carbonyl]-O-tert-butyl-L-threonyl-3-cyclohexyl-N-{(2R)-1-hydroxy-3-[(3S)-2-oxopiperidin-3-yl]propan-2-yl}-L-alaninamide
Authors:Blankenship, L.R, Liu, W.R.
Deposit date:2024-05-10
Release date:2025-05-14
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Structure of the SARS-CoV-2 main protease
To Be Published
9BQP
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BU of 9bqp by Molmil
Structure of the SARS-CoV-2 main protease in complex with inhibitor R79
Descriptor: 3C-like proteinase nsp5, propan-2-yl {(2R)-1-[(1R,2S,5R)-2-({(2R)-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propan-2-yl}carbamoyl)-6,6-dimethyl-3-azabicyclo[3.1.0]hexan-3-yl]-3,3-dimethyl-1-oxobutan-2-yl}carbamate
Authors:Blankenship, L.R, Liu, W.R.
Deposit date:2024-05-10
Release date:2025-05-14
Method:X-RAY DIFFRACTION (2 Å)
Cite:Structure of the SARS-CoV-2 main protease
To Be Published
9BQQ
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BU of 9bqq by Molmil
Structure of the SARS-CoV-2 main protease in complex with inhibitor R81
Descriptor: 3C-like proteinase nsp5, N-[(benzyloxy)carbonyl]-O-tert-butyl-L-threonyl-3-cyclohexyl-N-{(2R)-3-oxo-1-[(3S)-2-oxopyrrolidin-3-yl]butan-2-yl}-L-alaninamide
Authors:Blankenship, L.R, Liu, W.R.
Deposit date:2024-05-10
Release date:2025-05-14
Method:X-RAY DIFFRACTION (2 Å)
Cite:Structure of the SARS-CoV-2 main protease
To Be Published
9BQT
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BU of 9bqt by Molmil
Structure of the SARS-CoV-2 main protease in complex with inhibitor R80
Descriptor: 3C-like proteinase nsp5, N-[(benzyloxy)carbonyl]-O-tert-butyl-L-threonyl-3-cyclohexyl-N-{(2R)-1-imino-3-[(3S)-2-oxopyrrolidin-3-yl]propan-2-yl}-L-alaninamide
Authors:Blankenship, L.R, Liu, W.R.
Deposit date:2024-05-10
Release date:2025-05-14
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Structure of the SARS-CoV-2 main protease
To Be Published
9BQY
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BU of 9bqy by Molmil
Structure of the SARS-CoV-2 main protease in complex with inhibitor R70
Descriptor: (1R,2S,5R)-3-[N-(3,3-dimethylbutanoyl)-3-methyl-L-valyl]-N-{(1E,2R)-1-imino-3-[(3S)-2-oxopyrrolidin-3-yl]propan-2-yl}-6,6-dimethyl-3-azabicyclo[3.1.0]hexane-2-carboxamide, 3C-like proteinase nsp5
Authors:Blankenship, L.R, Liu, W.R.
Deposit date:2024-05-10
Release date:2025-05-14
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Structure of the SARS-CoV-2 main protease
To Be Published
9BQZ
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BU of 9bqz by Molmil
Structure of the SARS-CoV-2 main protease in complex with inhibitor x11
Descriptor: (1H-indol-4-yl)methanol, 3C-like proteinase nsp5
Authors:Blankenship, L.R, Liu, W.R.
Deposit date:2024-05-10
Release date:2025-05-14
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Structure of the SARS-CoV-2 main protease
To Be Published
9BR0
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BU of 9br0 by Molmil
Structure of the SARS-CoV-2 main protease in complex with inhibitor YR-B-84
Descriptor: 3C-like proteinase nsp5, O-tert-butyl-N-(trifluoroacetyl)-L-threonyl-3-cyclohexyl-N-{(2R)-1-imino-3-[(3S)-2-oxopyrrolidin-3-yl]propan-2-yl}-L-alaninamide
Authors:Blankenship, L.R, Liu, W.R.
Deposit date:2024-05-10
Release date:2025-05-14
Method:X-RAY DIFFRACTION (2.5 Å)
Cite:Structure of the SARS-CoV-2 main protease
To Be Published
9BR1
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BU of 9br1 by Molmil
Structure of the SARS-CoV-2 main protease in complex with inhibitor VB-A-70
Descriptor: 3C-like proteinase nsp5, N-[(benzyloxy)carbonyl]-O-tert-butyl-L-threonyl-N-{(1S,2R)-1-(1,3-benzoxazol-2-yl)-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propan-2-yl}-3-cyclohexyl-L-alaninamide
Authors:Blankenship, L.R, Liu, W.R.
Deposit date:2024-05-10
Release date:2025-05-14
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Structure of the SARS-CoV-2 main protease
To Be Published
9BS7
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BU of 9bs7 by Molmil
Structure of the SARS-CoV-2 main protease in complex with inhibitor Vinylpyridine
Descriptor: 3-ethenylpyridine, 3C-like proteinase nsp5
Authors:Blankenship, L.R, Liu, W.R.
Deposit date:2024-05-13
Release date:2025-05-14
Method:X-RAY DIFFRACTION (1.85 Å)
Cite:Structure of the SARS-CoV-2 main protease
To Be Published

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